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caCORRECT specifications

Information


Unique identifier OMICS_25354
Name caCORRECT
Alternative name chip artifact CORRECTion
Interface Web user interface
Restrictions to use None
Computer skills Basic
Maintained No

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Publication for chip artifact CORRECTion

caCORRECT citations

 (4)
library_books

Detection and correction of probe level artefacts on microarrays

2012
BMC Bioinformatics
PMCID: 3534149
PMID: 22647057
DOI: 10.1186/1471-2105-13-114

[…] approaches have been proposed for identifying probe-level artefacts, they are usually highly complex using e.g. image analysis as in the case of Harshlight or singular value decomposition in case of caCORRECT2. Furthermore, they were often developed for previous generations of Affymetrix arrays and do not scale well to the new Gene and Exon ST array designs. Here, we propose a much simpler approa […]

library_books

caCORRECT2: Improving the accuracy and reliability of microarray data in the presence of artifacts

2011
BMC Bioinformatics
PMCID: 3230913
PMID: 21957981
DOI: 10.1186/1471-2105-12-383

[…] The cornerstone of caCORRECT's outlier detection is the concept of variance scoring, which is a description of each probe's tendency to be an outlier. Calculation of this score, h, is similar to conducting a t-test for […]

library_books

Cancer Biomarkers: Are We Ready for the Prime Time?

2010
PMCID: 3827599
PMID: 24281040
DOI: 10.3390/cancers2010190

[…] ls are used as in silico or bioinformatics tools in the process of cancer biomarker discovery. RMA Express (http://rmaexpress.bmbolstad.com/RMAExpress), dChip (http://www.dchip.org/automate.htm), and caCORRECT (http://cacorrect.bme.gatech.edu/) are used during normalization, quality control, and interpretation of expression array data. In general, Gene Expression Omnibus (http://www.ncbi.nlm.nih.g […]

library_books

ArrayWiki: an enabling technology for sharing public microarray data repositories and meta analyses

2008
BMC Bioinformatics
PMCID: 2423441
PMID: 18541053
DOI: 10.1186/1471-2105-9-S6-S18

[…] Quality control of data in ArrayWiki is provided by caCorrect []. This automated process generates key quality control meta-data whenever Affymetrix DAT or CEL files are detected in an experiment. This meta-data includes a heatmap of probe variance, a […]

Citations

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caCORRECT institution(s)
Department of Electrical and Computer Engineering, Georgia Institute of Technology, Atlanta, GA, USA; Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA; Department of Biomedical Engineering, Department of Electrical and Computer Engineering, and Winship Cancer Institute, Georgia Institute of Technology and Emory University, Atlanta, GA, USA
caCORRECT funding source(s)
Supported by grants from the National Institutes of Health (R01CA108468, P20GM072069, U54CA119338), Georgia Cancer Coalition (Distinguished Cancer Scholar Award), and Microsoft Research eScience Fund and a graduate research fellowship from the National Science Foundation.

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